alizraksi
I am a bioinformatics researcher working on analyzing exome data to uncover genetic factors underlying complex diseases, and improving variant interpretation.
Tocagen Inc.San Diego, CA
Pinned Repositories
allelecounter
Counts the number of reads which map to either the reference or alternate allele at each heterozygous SNP.
DepthOfCoveragePerInterval
Calculate depth of coverage as GATK DepthOfCoverage -L does, but without merging intervals
maximum-likelihood-relatedness-estimation
mintapi
a screen-scraping API for Mint.com
ShatterSeek
sorva
Query the SORVA database and calculate the statistical significance of your next-gen sequencing (NGS) findings.
allelecounter
Counts the number of reads which map to either the reference or alternate allele at each heterozygous SNP.
alizraksi's Repositories
alizraksi/DepthOfCoveragePerInterval
Calculate depth of coverage as GATK DepthOfCoverage -L does, but without merging intervals
alizraksi/sorva
Query the SORVA database and calculate the statistical significance of your next-gen sequencing (NGS) findings.
alizraksi/cnsl_analysis
Analysis of probes for the CNSL region from 10,000 patient samples. This code was written to demonstrate my skills for a computational scientist technical screening interview.
alizraksi/allelecounter
Counts the number of reads which map to either the reference or alternate allele at each heterozygous SNP.
alizraksi/maximum-likelihood-relatedness-estimation
alizraksi/mintapi
a screen-scraping API for Mint.com
alizraksi/ShatterSeek
alizraksi/map_tx_coordinates
Software that translates transcript coordinates to genomic coordinates.
alizraksi/neoantigen_calling
Workflow for calling neoantigens in cancer samples, including filtering RNAseq and whole-exome sequencing (WES)data, determining HLA type, getting kmers of mutated peptides, and predicting epitopes.